29ZV

Crystal structure of Fc heterodimer with StrandLock CH3 interface

Summary for 29ZV

• Entry DOI: 10.2210/pdb29zv/pdb
• Descriptor: Fc_ChainB, Fc_ChainA, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... (4 entities in total)
• Functional Keywords: bispecific antibody, protein engineering, heavy chain pairing, heterodimerization, immune system
• Biological source: Homo sapiens; More
• Total number of polymer chains: 2
• Total formula weight: 54093.70

Authors

Cano, A.,Morillo, I.,Goenaga, A.,Laugieri, M.E.,Ereno Orbea, J.,Apellaniz, B.,Rujas, E. (deposition date: 2026-04-16, release date: 2026-07-01)

Primary citation

Cano, A.,Morillo, I.,Goenaga, A.,Laugieri, M.E.,de Blas, A.,Valdaliso-Diez, E.,Ereno-Orbea, J.,Apellaniz, B.,Rujas, E.
Engineering Fc heterodimerization via asymmetric beta-strand reconfiguration for bispecific antibody assembly.
J Biol Eng, 2026

PubMed Abstract: Bispecific antibodies (bsAbs) have unlocked new therapeutic modalities by enabling dual antigen targeting, offering transformative potential in oncology and autoimmune diseases. However, the efficient production of full-length IgG-like bsAbs remains hindered by mispairing of heavy and light chains, yielding heterogeneous, low-purity products. Here, we present an Fc engineering strategy, termed StrandLock, that enables the controlled assembly of bsAbs through asymmetric β-strand redistribution at the CH3 dimer interface, in which the β-strand segment (residues N390-S400) is duplicated in one heavy chain and deleted from the partner. This structural asymmetry, combined with targeted point mutations, promotes obligate heterodimerization while suppressing homodimer formation. Importantly, these modifications enable the correct assembly of bsAbs with purities approaching 99% and allow streamlined manufacturing via a single-step affinity purification process comparable to that used for monoclonal antibodies. The engineered bsAbs retain key Fc effector functions and exhibit comparable in vivo pharmacokinetics to native IgG. Structural analysis confirms preservation of the CH3 fold and native-like interfacial packing. Despite a modest reduction in thermal stability, the molecules remain aggregation-resistant and functionally robust under accelerated stress conditions. We further demonstrate the versatility of the StrandLock design across multiple antibody pairs underscoring its utility as a strategy for bsAb production.

PubMed: 42316245
DOI: 10.1186/s13036-026-00717-x

Experimental method

X-RAY DIFFRACTION (2.064 Å)